Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/94f3fc7c958add0b8d400fe60e8b89b634c86d07content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 94f3fc7c958add0b8d400fe60e8b89b634c86d07
Description
Labels
  • assay: 10x_Multiome
  • brain_region: basal ganglia
  • cell_meta_resource_id: summary/johansen2025Crossspecies/10x_multiomics_cell_meta_data
  • data_types: fragments
  • dataset: johansen2025Crossspecies
  • library: 94f3fc7c958add0b8d400fe60e8b89b634c86d07
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2314_F02
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell ACTTGTCGTGTTTGAG-2314_F02, CTTGTTCCATAAGTCT-2314_F02, GCTTGACCATGTTGCA-2314_F02, TGAGTGAAGTAGCGCC-2314_F02, CGGATTAGTTTGGGTA-2314_F02 (top 5 of 1590 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
83,758,121
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 83758121
chr1 7502394
chr2 6546769
chr3 5460656
chr4 4327701
chr5 4635527
chr6 4615061
chr7 4381809
chr8 3842247
chr9 3633529
chr10 3985191
chr11 4492858
chr12 3968050
chr13 2258797
chr14 2769721
chr15 2557795
chr16 2940311
chr17 3575949
chr18 1993205
chr19 3013143
chr20 2186883
chr21 970385
chr22 1655581
chrX 2413801
chrY 8269
GL000009.2 324
GL000194.1 2117
GL000195.1 2014
GL000205.2 4863
GL000213.1 33
GL000218.1 1635
GL000219.1 7020
KI270711.1 274
KI270713.1 936
KI270721.1 54
KI270726.1 3
KI270727.1 181
KI270728.1 2831
KI270731.1 59
KI270734.1 145

Fragment lengths

fragments min max mean median
fragments 83758121 1 5036 181.33 161
global fragment-length histogram

Files

Filename Size md5
94f3fc7c958add0b8d400fe60e8b89b634c86d07.gz 788.96 MB 7938ea9e40686ef680775bd26ed0b567
94f3fc7c958add0b8d400fe60e8b89b634c86d07.gz.tbi 711.65 KB 4959b4b838fd75ca9ba9b7ce891f5294
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB b087ddc1335c29835ed072b2ff13a214
statistics/